Structure #152381

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	141,211,334 - 141,211,449
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	86.58
Columns	120
Mean single MFE	-46.7
Consensus MFE	-39.36
Combinations/base pair	41 / 39 = 1.05
SCI	0.84
z-score	-1.94
RNA class probability	0.897146

This structure is part of cluster 84280

Alignment

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RNAz output

	  
###########################  RNAz 0.1.1  #############################

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  86.58
 Mean single sequence MFE: -46.70
 Consensus MFE: -39.36
 Energy contribution: -41.30
 Covariance contribution:   1.94
 Mean z-score:  -1.94
 Structure conservation index:   0.84
 SVM decision value:   1.00
 SVM RNA-class probability: 0.897146
 Prediction: RNA

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>hg17.chr5/141211449-141211334
CACUGAGUCUGUCACCAACUGGGCACUGGAGAGAUGAAACCAAAGGUGGGCAGGGGUUGGCGACAGCACUGGGGACUAUCCCUGUGGGUCCUAGGUCUGUGAAGCCCCUCCCCAA
......((((.((.((....))......)).))))...........((((.(((((((..(.((((..(((((..((((....))))..)))))..))))).))))))).)))). ( -41.50)
>canFam1.chr2/37412374-37412260
CACUGAGUCUGUCACCACCUGGGCACUCGAGGAGAAACCAAAGGUGGGCAGGGGAUAGGUGACAGCACUGGGGACCACCCCUGUUGGUCCUAGGUCUGUGAAGUCCUUCCCCAA
..............((((((((...(((...)))...))..))))))...(((((.((((.((((.(((.(((((((.......))))))).))))))).)...)))))))).. ( -43.40)
>mm5.chr18/38630341-38630221
CACUGAGUCUGUCACCACCUGGGCACUCAAGAGGUGAAACCAAAGGUGGGCAGGGGGUGGGUGACAGACAGCACUAGGGACUAGCUUUGUUGGUCCUAGGUCUGUGAGACCCCUCCCCGA
........((((..((((((((.((((.....))))...))..))))))))))((((.(((.(.(..((((.(((.(((((((((...))))))))).)))))))..).)))).)))).. ( -52.20)
>rn3.chr18/1130-1014
UACUGAGUCUGUCACCACCUGGGCACUCAAGAGGUGAAACCAAAGGUGGGCAGGGGGUGGGUGACAGCACUAGAGACUAGCUUUGUUGGUCCUAGGUCUGUGAGAUCCCUCCCCAA
........((((..((((((((.((((.....))))...))..))))))))))((((.((((.((((..((((.(((((((...)))))))))))..)))).)...))).)))).. ( -49.70)
>consensus
CACUGAGUCUGUCACCACCUGGGCACUCAAGAGGUGAAACCAAAGGUGGGCAGGGGGUGGG____UGACAGCACUAGGGACUAGCCCUGUUGGUCCUAGGUCUGUGAAACCCCUCCCCAA
........((((..((((((((.((((.....))))...))..))))))))))((((.(((......((((.(((.(((((((((...))))))))).))))))).....))).)))).. (-39.36 = -41.30 +   1.94)

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Consensus structure

Secondary structure graph

Secondary structure

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Montain plot

Secondary structure

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Dotplot

Secondary structure

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